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ggbio (version 1.20.0)

stat_bin: Binning method

Description

Binning method especially for Rle and RleList, for data.frame it's just calling ggplot2::stat_bin.

Usage

"stat_bin"(data, ...)


"stat_bin"(data, ..., binwidth, nbin = 30, xlab, ylab, main, geom = c("bar", "heatmap"), type = c("viewSums","viewMins", "viewMaxs", "viewMeans"))
"stat_bin"(data, ..., binwidth, nbin = 30, xlab, ylab, main, indName = "sample", geom = c("bar", "heatmap"), type = c("viewSums","viewMins", "viewMaxs", "viewMeans"))

Arguments

data
Typically a data.frame or Rle or RleList object.
...
arguments passed to aesthetics mapping.
binwidth
width of the bins.
nbin
number of bins.
xlab
x label.
ylab
y label.
main
title.
indName
when faceted by a RleList, name used for labeling faceted factor. Default is 'sample'.
geom
geometric types.
type
statistical summary method used within bins, shown as bar height or heatmap colors.

Value

a ggplot object.

Examples

Run this code
library(IRanges)
lambda <- c(rep(0.001, 4500), seq(0.001, 10, length = 500), 
            seq(10, 0.001, length = 500))
xVector <- rpois(1e4, lambda)
xRle <- Rle(xVector)
xRleList <- RleList(xRle, 2L * xRle)

ggplot() + stat_bin(xRle)
ggplot(xRle) + stat_bin()
ggplot(xRle) + stat_bin(nbin = 100)
ggplot(xRle) + stat_bin(binwidth = 200)

p1 <- ggplot(xRle) + stat_bin(type = "viewMeans")
p2 <- ggplot(xRle) + stat_bin(type = "viewSums")
## y scale are different.
tracks(viewMeans = p1, viewSums = p2)

ggplot(xRle) + stat_bin(geom = "heatmap")
ggplot(xRle) + stat_bin(nbin = 100, geom = "heatmap")
ggplot(xRle) + stat_bin(binwidth = 200, geom = "heatmap")

## for RleList
ggplot(xRleList) + stat_bin()
ggplot(xRleList) + stat_bin(nbin = 100)
ggplot(xRleList) + stat_bin(binwidth = 200)

p1 <- ggplot(xRleList) + stat_bin(type = "viewMeans")
p2 <- ggplot(xRleList) + stat_bin(type = "viewSums")
## y scale are different.
tracks(viewMeans = p1, viewSums = p2)

ggplot(xRleList) + stat_bin(geom = "heatmap")
ggplot(xRleList) + stat_bin(nbin = 100, geom = "heatmap")
ggplot(xRleList) + stat_bin(binwidth = 200, geom = "heatmap")

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